Sample 3300027178

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

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Sample 3300027178

3300027178: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G05.2A5-11 (SPAdes)

Overview

Basic Information
IMG/M Taxon OID	3300027178 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0095510 \| Gp0091566 \| Ga0207606
Sample Name	Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-G05.2A5-11 (SPAdes)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	30042109
Sequencing Scaffolds	14
Novel Protein Genes	16
Associated Families	16

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	1
All Organisms → cellular organisms → Bacteria	4
Not Available	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium 13_2_20CM_2_64_7	1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)
Type	Environmental
Taxonomy	Environmental → Terrestrial → Soil → Unclassified → Agricultural Land → Soil → Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	terrestrial biome → agricultural field → agricultural soil
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Soil (non-saline)

Location Information
Location	Wisconsin, United States
Coordinates	Lat. (^o)	43.3	Long. (^o)	-89.38	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

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Associated Families

Family	Category	Number of Sequences	3D Structure?
F006629	Metagenome / Metatranscriptome	368	Y
F016050	Metagenome / Metatranscriptome	250	Y
F017166	Metagenome / Metatranscriptome	242	Y
F028301	Metagenome	192	Y
F029216	Metagenome / Metatranscriptome	189	Y
F034688	Metagenome / Metatranscriptome	174	Y
F038225	Metagenome / Metatranscriptome	166	Y
F041750	Metagenome / Metatranscriptome	159	Y
F044695	Metagenome / Metatranscriptome	154	Y
F045732	Metagenome / Metatranscriptome	152	N
F059558	Metagenome / Metatranscriptome	133	Y
F060880	Metagenome / Metatranscriptome	132	N
F082749	Metagenome / Metatranscriptome	113	Y
F085779	Metagenome / Metatranscriptome	111	N
F087420	Metagenome / Metatranscriptome	110	Y
F102800	Metagenome / Metatranscriptome	101	Y

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0207606_100068	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	1669	Open in IMG/M
Ga0207606_100070	All Organisms → cellular organisms → Bacteria	1664	Open in IMG/M
Ga0207606_100103	Not Available	1569	Open in IMG/M
Ga0207606_100346	Not Available	1209	Open in IMG/M
Ga0207606_100966	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium 13_2_20CM_2_64_7	889	Open in IMG/M
Ga0207606_101548	Not Available	774	Open in IMG/M
Ga0207606_101552	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria	773	Open in IMG/M
Ga0207606_101604	All Organisms → cellular organisms → Bacteria	765	Open in IMG/M
Ga0207606_102181	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	696	Open in IMG/M
Ga0207606_102968	All Organisms → cellular organisms → Bacteria	634	Open in IMG/M
Ga0207606_103398	Not Available	606	Open in IMG/M
Ga0207606_103738	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	589	Open in IMG/M
Ga0207606_104950	All Organisms → cellular organisms → Bacteria	541	Open in IMG/M
Ga0207606_105179	Not Available	533	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207606_100068	Ga0207606_1000682	F029216	MYVLIVVIGVLSQGASVLPVGVTSQVVGKFKNLDECKAAAKQPHAAGPIADITVVTTWGATWYCTYSGTN
Ga0207606_100070	Ga0207606_1000701	F059558	EKRGKLLICSLKGEVKNKHNRNGWIFSCFAAHLFEQDLF
Ga0207606_100103	Ga0207606_1001031	F045732	HVQKLRGPRAESLVSKMRHRRRKVFIDTHKGRVSAGFTVAAEADAADVSMRLRERGWIAYRLRLEAEQYAWVATVIDWTRRAA
Ga0207606_100346	Ga0207606_1003461	F087420	GVASQAFACGSSRQMGPKLGTRAKRSATGVAIALALSALPHAPASAAKPPYGSCVAVTKQEYDSAKKQHMLQTRYTQYVRTGLPGRRQYWYCR
Ga0207606_100452	Ga0207606_1004523	F082749	RKRLINHAMTLDAGLSLKGVRHDIDPVVSLPARPVPGMALMLVRFINHFEVLRRESLGQLFCDEIGGSHIARLGERSLPVNGYKQVLKASPVKAHNVRS
Ga0207606_100966	Ga0207606_1009663	F041750	AWTGYDRNMLKAPTDADIVRLRQFLRRLESDAKEAVEDAELCQHEIDRLKSEIAYLEAARSRAFLAQIGIDFGAAASGRRNYSAERGKPS
Ga0207606_101548	Ga0207606_1015482	F017166	RGSGVNKIMFIVALGAMLFIGWLYLGEMSDVRSIKAAVTAAADSTAVALSQSANPERNTDADADGIFIKHIQTSSTLEDVSVKQSVEPISAGRLRQSVKVTARARTTLSEFFNMQGAEIDITATHDFDRKK
Ga0207606_101552	Ga0207606_1015522	F102800	LSEIFEVSRTGELAASVRRPLGRGGLRAFVERESVY
Ga0207606_101604	Ga0207606_1016042	F034688	VLGASLFLGTVMVIGTFHGVDPSNELTANGRAGRIARTLQDGTLCHYMIFDNKTAQTVEDRIGRCDENKPKPKQEKPATFTWGK
Ga0207606_102181	Ga0207606_1021811	F006629	MVKVMGMLTLETVPGLNRHCRNALVAALSRIGLPVLDETEQPPTLPLPESTVQTITPLPVTC
Ga0207606_102968	Ga0207606_1029682	F060880	MRTSADSRKMQRRREELRSHSEAAVATIWLVFYVLGLVVAVSSPIVSRALEFAAH
Ga0207606_103398	Ga0207606_1033981	F085779	RFLGASGVAAAVLLYSLSSAVFAQDEPKRPINPGLVPNTGQINTGAAPQPWSKSAEVDNIPAPAEAWAALVQPISRQPSAGGGATTTGTGGQQPPASGTINASSEPPPSGPIGSFGQTIPAKFSKRNDILDHLPTMAIPLPLTQEQRKQIYDAVMAEKSQPVVGADALELASELSPNQALNGMRPLPESVRSIDGVSRLYYI
Ga0207606_103738	Ga0207606_1037381	F028301	RRRCIGFRIAFIFGILLAVINRGDWTLLSIALAGMAILVVAYWRDCRRPRHSP
Ga0207606_104950	Ga0207606_1049501	F016050	MDIQPDANVEDQDRAKCGKNETGGMKSFACRVRKYVGNRAADDRSDDAEHDCPENGHVHMHHRFRNNSGDQPNNNVPD
Ga0207606_105179	Ga0207606_1051791	F038225	MKRFSLALLGTVGAFFILTPAQAADYRVVQYNDTKICQVVDMAGPFKPISSKYTVLTKKSLPSFADAMKARADVGAKAKCIL
Ga0207606_105347	Ga0207606_1053472	F044695	MKMLAVRCLVALTLLVAAAVAFANPFKSKIISSDDSVLEITVPGDHFMKITNFTQDGGLVTDRAVVEVTLP

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